Alignment viewer

BLASTN 2.6.0+ Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Database: Neotoma_20lepida_20[genbank_20GCA_5F001675575.1_202016-06-23] 119,373 sequences; 2,353,855,022 total letters Query= NC_003678.1 Length=12602 Score E Sequences producing significant alignments: (Bits) Value seq66261 262 3e-66 seq116960 190 2e-44 seq44413 187 2e-43 seq36086 183 2e-42 seq87275 150 1e-32 >seq66261 Length=1077998 Score = 262 bits (290), Expect = 3e-66 Identities = 156/163 (96%), Gaps = 0/163 (0%) Strand=Plus/Plus Query 5006 AGGAGGTTTGAAATGGACCGGGAACCTAAGAGTGCCAGATACTGTGCTGAGTGTAATAGG 5065 ||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||| Sbjct 841903 AGGAGGTTTGAAATGGACCGGGAACCTAAGAGTGCCAGATATTGTGCTGAGTGTAATAGG 841962 Query 5066 CTGCATCCTGCTGAGGAAGGTGACTTTTGGGCAGAGTCAAGCATGTTGGGCCTCAAAATC 5125 |||||||||||||| ||||| |||||||||||||||||||||||||| |||||||| ||| Sbjct 841963 CTGCATCCTGCTGAAGAAGGAGACTTTTGGGCAGAGTCAAGCATGTTAGGCCTCAAGATC 842022 Query 5126 ACCTACTTTGCGCTGATGGATGGAAAGGTGTATGATATCACAG 5168 ||||||||||| ||||||||||||||||| ||||||||||||| Sbjct 842023 ACCTACTTTGCACTGATGGATGGAAAGGTCTATGATATCACAG 842065 Score = 129 bits (142), Expect = 5e-26 Identities = 85/94 (90%), Gaps = 0/94 (0%) Strand=Plus/Plus Query 5166 CAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACAGAGTCCCTTATC 5225 |||||||||||||||||||||||||||||||||| |||||||| |||||||| ||||| | Sbjct 842162 CAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCTCCAGATACTCACAGAGTTCCTTACC 842221 Query 5226 ACATCCCATTTGGTTCACGGATGCCAGGTACCAG 5259 ||||| |||||||||| ||| | || |||||||| Sbjct 842222 ACATCTCATTTGGTTCTCGGGTTCCGGGTACCAG 842255 >seq116960 Length=1040990 Score = 190 bits (210), Expect = 2e-44 Identities = 196/254 (77%), Gaps = 3/254 (1%) Strand=Plus/Minus Query 4987 CCGATGCCAGGGAAAGCATAGGAGGTTTGAAATGGACCGGGAACCTAAGAGTGCCAGATA 5046 |||||||| ||||| || | |||| ||| | | ||| | || ||||| ||| ||||| Sbjct 28912 CCGATGCCGAGGAAAACACAAGAGGGTTGCTACGAACCAGAAATCTAAG--TGCAAGATA 28855 Query 5047 CTGTGCTGAGTGTAATAGGCTGCATCCTGCTGAGGAAGGTGACTTTTGGGCAGAGTCAAG 5106 || || | | |||||| ||||| | ||||| |||| |||||||||||||| |||| Sbjct 28854 CTATGTGAAATATAATAG-CTGCAAGCCACTGAGAAAGGAAACTTTTGGGCAGAGGCAAG 28796 Query 5107 CATGTTGGGCCTCAAAATCACCTACTTTGCGCTGATGGATGGAAAGGTGTATGATATCAC 5166 | ||||||||||||| | ||||||||| | || ||||||||||||| || ||||| Sbjct 28795 CCTGTTGGGCCTCAAGGTTACCTACTTTACATTGGTGGATGGAAAGGTCTACTGCATCAC 28736 Query 5167 AGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAGATACCCACAGAGTCCCTTATCA 5226 || | |||||||| ||| | ||||||||||||| ||| ||| |||||| |||||||| Sbjct 28735 AGCGAGGGCTGGACTCCACTGCGTGGGAATCTCCCTAGACTCCCTCAGAGTTCCTTATCA 28676 Query 5227 CATCCCATTTGGTT 5240 ||| ||||||||| Sbjct 28675 CATTTCATTTGGTT 28662 >seq44413 Length=628612 Score = 187 bits (206), Expect = 2e-43 Identities = 220/293 (75%), Gaps = 9/293 (3%) Strand=Plus/Plus Query 4959 AAGACTCAATGAATACGATGATGTGCAACCGATGCCAGGGAAAGCATAGGAG----GTTT 5014 |||| ||| |||| || |||||| | | | ||||||| |||| | || || | || Sbjct 310327 AAGAATCAGTGAACACTATGATGGGTAGCTGATGCCAAAGAAAACCTAACAGACAGGCTT 310386 Query 5015 GAAATGGACCGGGAACCTAAGAGTGCCAGATACTGTGCTGAGTGTAATAGGCTGCATCCT 5074 | || ||| | | |||| |||||| ||| | ||||||||| |||||||| | | || Sbjct 310387 GGAACAGACTGAGGACCTCAGAGTGTG-GATGCCATGCTGAGTGCAATAGGCTACCTTCT 310445 Query 5075 GCTGAGGAAGGTGACTTTTGGGCAGAGTCAA-GCATGTTGGGCCTCAAAATCACCTACTT 5133 ||| |||| || ||| | ||||||| |||| ||| | || |||||| |||| | ||| Sbjct 310446 GCTCAGGACGGAGACCTA-GGGCAGAATCAAAGCACGCTGAACCTCAAGATCATGTGCTT 310504 Query 5134 TGCGCTGATGGATGGAAAGGTGTATGATATCACAGAGTGGGCTGGATGCCAGCGTGTGGG 5193 || | ||||||||||||| ||||| || | || ||||||||||||||||||||||| Sbjct 310505 GGCATGGGTGGATGGAAAGGTCTATGACATAATGGANTGGGCTGGATGCCAGCGTGTGGG 310564 Query 5194 AATCTCCCCAGATACCCACAGAGTCCCTTATCACATCCCATTTGGTTCACGGA 5246 |||||||| || | || ||||| || ||||||||| |||||||||||| || Sbjct 310565 AATCTCCCAAGTTGCC--CAGAGCTCCATATCACATCTCATTTGGTTCACAGA 310615 >seq36086 Length=27116 Score = 183 bits (202), Expect = 2e-42 Identities = 220/295 (75%), Gaps = 13/295 (4%) Strand=Plus/Minus Query 4965 CAATGAATACGATGATGTGCAACCGATGCCAGGGAAAGCATAGGAGGTTTGAAATGGACC 5024 |||||| | | ||||||||| | ||||| || ||| |||||| ||||| || |||| Sbjct 26320 CAATGAGTCCTGTGATGTGCAGCTAATGCCTAGGGAAGTGTAGGAGATTTGAGATAGACC 26261 Query 5025 GGGAACCTAAGAGTGCCAGATACTGTGCTGAGTGTAATAGGCTGCATCCTGCTGAGGAAG 5084 ||| ||||||||| ||||| ||||| ||| |||||||||| | | ||||||||| ||| Sbjct 26260 AGGAGCCTAAGAGTTCCAGACACTGTACTG-GTGTAATAGGTTACCCCCTGCTGAGAAAG 26202 Query 5085 GTGACTTTTGGGCAGAGTCAAGCATGTTGGGCCTCAAAATCACCTACTTTGCGCTGATGG 5144 | |||| |||||| |||||||| |||||||| |||| || ||| ||| Sbjct 26201 GAGACTCA--GGCAGATCCAAGCATGGCAGGCCTCAAGATCA--------GCACTGGTGG 26152 Query 5145 ATGGAAAGGTGTATGATATCACAGAGTGGGCTGGATGCCAGCGTGTGGGAATCTCCCCAG 5204 |||| ||| | ||||| |||||||||||||||||| |||| |||||| |||| | | Sbjct 26151 ATGGGAAGAT-TATGACGTCACAGAGTGGGCTGGATCGCAGCATGTGGGCATCT-TCTGG 26094 Query 5205 ATACCCACAGAGTCCCTTATCACATCCCATTTGGTTCACGGATGCCAGGTACCAG 5259 |||||||||| | | || ||| | || |||| || || | ||||||||||| Sbjct 26093 ATACCCACAGGATTCTGTACAACAGCTCAGTTGGCTCTTGGGTACCAGGTACCAG 26039 >seq87275 Length=228649 Score = 150 bits (166), Expect = 1e-32 Identities = 204/279 (73%), Gaps = 19/279 (7%) Strand=Plus/Minus Query 4997 GGAAAGCATAGGAGGTTTGAAATGGACCGGGAACCTAAGAGTGCCAGATACTGTGCTGAG 5056 ||||||| | |||| |||| ||| ||| || || ||||||||| | ||||||| || Sbjct 16395 GGAAAGCTTCAGAGGCTTGAGATGCACCAGGCACTTAAGAGTGCTGGGCACTGTGCCAAG 16336 Query 5057 TGTAATAGGCTGCATCCTGCTGAGGAAGGTGACTTTTGGGCAGAGTCAAGCATGTTGGGC 5116 ||| ||| ||| |||||||||||||| || ||| || | ||| ||||||| || || Sbjct 16335 AGTATTAGATGGCACCCTGCTGAGGAAGGAGA--TTTTGGAATAGTAAAGCATGCTGAGC 16278 Query 5117 CTCAAAATCACCTACTTTGCGCTGATGGATGGAAAGGTGTATGATATCACAGAGTGGGCT 5176 || | ||||| | |||||| |||| ||||| ||||| || ||||| ||| Sbjct 16277 CT--------CTTACTTAGTACTGATGAATGGCAAGGTCTATGACAT--CAGAGAGGGAC 16228 Query 5177 GGATGCCAGCGTGTGGGAATCT--CCCCAGATACCCACAGAGTCCCTTATCACATCCCAT 5234 ||||||||| | |||||| ||||||||||| ||| || || |||||||| ||| Sbjct 16227 AGATGCCAGC--ATAAGAATCTCCCCCCAGATACC--CAGGGTTCCATATCACATGACAT 16172 Query 5235 TTGGTTCACGGATGCCAGGTACCAGCGACCAG-AGAGAG 5272 ||||||| || | |||||| |||| | ||| |||||| Sbjct 16171 TTGGTTCTGGGTTACCAGGTGCCAGTGGTCAGAAGAGAG 16133 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 40157198519752